Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0003037

Physical Location & Seq

Genomic Coordinates Reverse (-)

7118097 .. 7119389

Gene Structure 1293 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG091700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 258 bp

ATGGCTGTTAATGGGGATGCTTCTAGCAACATCACTCTTGATGGTGTTTCTGCAGGTGGTGGTTCTAACCCGGTCATTCAAGAGGAGAAAGAATACAAGTCACCATTTGTCTCTACAGGAATGAACTGTGATTTTGCCCAGGATGTTGTGGCTATTAATACCACAGAGAAGAAGTGTTGCACTATTGGGGAGCTCAATAAGCGAGCTGTTGTGACCCCAGATATTGACTCCGTTTTGAACAGTTTAGAGGATTTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001817 GO:0001819 GO:0002682 GO:0002684 GO:0003674 GO:0003682 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005737 GO:0005829 GO:0008150 GO:0016604 GO:0016607 GO:0030880 GO:0031347 GO:0031349 GO:0031974 GO:0031981 GO:0032479 GO:0032481 GO:0032648 GO:0032728 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0045088 GO:0045089 GO:0048518 GO:0048583 GO:0048584 GO:0050776 GO:0050778 GO:0050789 GO:0051239 GO:0051240 GO:0055029 GO:0061695 GO:0065007 GO:0070013 GO:0080134 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169

Pfam Domains

Protein Families

RNA_pol_Rpc4

Protein Analysis

85

Amino Acids

8.92

Weight (kDa)

4.19

Isoelectric Point (pI)

51.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpc4	PF05132	37 - 75	1.6e-08	RNA polymerase III RPC4

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0003037)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G09380 AT5G09380 AT5G09380
fragaria_vesca	FvH4_1g08400 FvH4_1g08400 FvH4_7g27240 FvH4_7g27240
malus_domestica	MD01G1181300.v1.1 MD02G1088300.v1.1 MD07G1251400.v1.1
prunus_persica	Prupe.2G275200_v2.0.a1 Prupe.7G201300_v2.0.a1
pyrus_communis	pycom02g07090 pycom07g22410
rosa_chinensis	RchiOBHm_Chr1g0374021 RchiOBHm_Chr2g0094511 RchiOBHm_Chr3g0487921
rosa_laevigata	RLG00000016497 RLG00000026785
rosa_multiflora	Rmu_sc0004359.1_g000044 Rmu_sc0006924.1_g000006 Rmu_sc0009793.1_g000002
rosa_roxburghii	Rroxscaffold_2G00147110 Rroxscaffold_4G00283820
rosa_rugosa	Rorug01G0380300 Rorug02G0044300.1
rosa_samantha	Rh1AG390800 Rh1BG354900 Rh1CG368000 Rh1DG385600 Rh2AG092600 Rh2BG092800 Rh2CG095300 Rh2DG091700 Rh3AG285100 Rh6AG149200
rosa_wichuraiana	Rw1G034440 Rw6G012910

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	44
Acc36I	ACCTGC	1 cut(s)	44
AgsI	TTSAA	2 cut(s)	80, 238
AjnI	CCWGG	1 cut(s)	138
AluBI	AGCT	2 cut(s)	193, 206
AluI	AGCT	2 cut(s)	193, 206
Alw21I	GWGCWC	1 cut(s)	195
Alw26I	GTCTC	1 cut(s)	115
AseI	ATTAAT	1 cut(s)	156
AsuC2I	CCSGG	1 cut(s)	71
AsuHPI	GGTGA	1 cut(s)	93
BanII	GRGCYC	1 cut(s)	195
Bbv12I	GWGCWC	1 cut(s)	195
BccI	CCATC	1 cut(s)	35
BciT130I	CCWGG	1 cut(s)	140
BcnI	CCSGG	1 cut(s)	71
BcoDI	GTCTC	1 cut(s)	115
BfaI	CTAG	1 cut(s)	24
BfmI	CTRYAG	2 cut(s)	51, 114
BfuAI	ACCTGC	1 cut(s)	44
Bme1390I	CCNGG	2 cut(s)	71, 140
BmrFI	CCNGG	2 cut(s)	71, 140
BmsI	GCATC	1 cut(s)	7
BpuMI	CCSGG	1 cut(s)	71
BsaJI	CCNNGG	1 cut(s)	138
BseBI	CCWGG	1 cut(s)	140
BseDI	CCNNGG	1 cut(s)	138
BseGI	GGATG	2 cut(s)	22, 148
BseRI	GAGGAG	1 cut(s)	98
BsiHKAI	GWGCWC	1 cut(s)	195
BsiSI	CCGG	1 cut(s)	71
BsmAI	GTCTC	1 cut(s)	115
Bsp1286I	GDGCHC	1 cut(s)	195
BspMAI	CTGCAG	1 cut(s)	55
BspMI	ACCTGC	1 cut(s)	44
BssECI	CCNNGG	1 cut(s)	138
Bst2UI	CCWGG	1 cut(s)	140
Bst4CI	ACNGT	2 cut(s)	128, 242
BstC8I	GCNNGC	1 cut(s)	204
BstF5I	GGATG	2 cut(s)	22, 148
BstMAI	GTCTC	1 cut(s)	115
BstMWI	GCNNNNNNNGC	1 cut(s)	199
BstNI	CCWGG	1 cut(s)	140
BstSCI	CCNGG	2 cut(s)	69, 138
BstSFI	CTRYAG	2 cut(s)	51, 114
BtsCI	GGATG	2 cut(s)	22, 148
BveI	ACCTGC	1 cut(s)	44
Cac8I	GCNNGC	1 cut(s)	204
CviJI	RGCY	4 cut(s)	5, 152, 193, 206
CviKI_1	RGCY	4 cut(s)	5, 152, 193, 206
Ecl136II	GAGCTC	1 cut(s)	193
Eco24I	GRGCYC	1 cut(s)	195
Eco53kI	GAGCTC	1 cut(s)	193
EcoICRI	GAGCTC	1 cut(s)	193
EcoRII	CCWGG	1 cut(s)	138
EcoT38I	GRGCYC	1 cut(s)	195
FaiI	YATR	1 cut(s)	256
FokI	GGATG	2 cut(s)	29, 155
FriOI	GRGCYC	1 cut(s)	195
FspBI	CTAG	1 cut(s)	24
HapII	CCGG	1 cut(s)	71
HinfI	GANTC	1 cut(s)	227
HpaII	CCGG	1 cut(s)	71
HphI	GGTGA	1 cut(s)	93
Hpy188III	TCNNGA	2 cut(s)	38, 80
HpyCH4III	ACNGT	2 cut(s)	128, 242
HpyCH4V	TGCA	2 cut(s)	53, 180
HpyF10VI	GCNNNNNNNGC	1 cut(s)	199
LmnI	GCTCC	1 cut(s)	190
LpnPI	CCDG	6 cut(s)	39, 84, 102, 125, 152, 231
LweI	GCATC	1 cut(s)	7
MaeI	CTAG	1 cut(s)	24
MaeIII	GTNAC	2 cut(s)	99, 211
MboII	GAAGA	1 cut(s)	181
MhlI	GDGCHC	1 cut(s)	195
MlyI	GAGTC	1 cut(s)	221
MnlI	CCTC	2 cut(s)	76, 241
MseI	TTAA	2 cut(s)	9, 156
MspI	CCGG	1 cut(s)	71
MspR9I	CCNGG	2 cut(s)	71, 140
MvaI	CCWGG	1 cut(s)	140
MwoI	GCNNNNNNNGC	1 cut(s)	199
NciI	CCSGG	1 cut(s)	71
NmuCI	GTSAC	2 cut(s)	99, 211
PaqCI	CACCTGC	1 cut(s)	44
PleI	GAGTC	1 cut(s)	221
PpsI	GAGTC	1 cut(s)	221
PshBI	ATTAAT	1 cut(s)	156
Psp124BI	GAGCTC	1 cut(s)	195
Psp6I	CCWGG	1 cut(s)	138
PspGI	CCWGG	1 cut(s)	138
PstI	CTGCAG	1 cut(s)	55
SacI	GAGCTC	1 cut(s)	195
SaqAI	TTAA	2 cut(s)	9, 156
SchI	GAGTC	1 cut(s)	221
ScrFI	CCNGG	2 cut(s)	71, 140
SduI	GDGCHC	1 cut(s)	195
SetI	ASST	3 cut(s)	58, 195, 208
SfaNI	GCATC	1 cut(s)	7
SfcI	CTRYAG	2 cut(s)	51, 114
SspMI	CTAG	1 cut(s)	24
SstI	GAGCTC	1 cut(s)	195
StyD4I	CCNGG	2 cut(s)	69, 138
TaaI	ACNGT	2 cut(s)	128, 242
Tru1I	TTAA	2 cut(s)	9, 156
Tru9I	TTAA	2 cut(s)	9, 156
TseFI	GTSAC	2 cut(s)	99, 211
Tsp45I	GTSAC	2 cut(s)	99, 211
TspDTI	ATGAA	1 cut(s)	137
TspGWI	ACGGA	1 cut(s)	220
VspI	ATTAAT	1 cut(s)	156
XspI	CTAG	1 cut(s)	24

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.